Author

X.-j. Li

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Immunology· 4 Animal Behavior & Cognition· 1 Cancer Biology· 1 Microbiology· 1

Signature Assays, Organisms & Methods

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Organism:human· 5 Research Focus:cell type annotation· 4 Approach:deep learning· 4 Research Focus:differential expression· 4 Assay:scRNA-seq· 4 Approach:experimental assay· 3 Approach:statistical model· 3 Assay:bulk RNA-seq· 2

Frequent Co-Authors

A. K. Savage· 4 shared E. Swanson· 4 shared T. R. Torgerson· 4 shared A. T. Heubeck· 3 shared C. Lord· 3 shared J. Reading· 3 shared L. T. Graybuck· 3 shared P. J. Skene· 3 shared

Activity by Year

2018-2023 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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4 shared papersImmunology

A. K. Savage

Mutual co-authors in cluster

Author profile →

7 papers

Recent·Most cited

Single-cell Sequencing Highlights Heterogeneity and Malignant Progression in Actinic Keratosis and Cutaneous Squamous Cell Carcinoma

D.-D. Zou, Y.-Z. Sun, X.-J. Li, W.-J. Wu, D. Xu, Y.-T. He, J. Qi, Y. Tu, Y. Tang, Y.-H. Tu, X.-L. Wang, X. Li, F.-Y. Lu, L. Huang, H. Long, , X. Li

This study uses single-cell RNA-seq to analyze the progression from actinic keratosis to cutaneous squamous cell carcinoma, identifying key driver genes and tumor microenvironment interactions.

eLife · Dec 15, 2023Peer-reviewedCancer Biology

PALMO: a comprehensive platform for analyzing longitudinal multi-omics data

S. V. Vasaikar, A. K. Savage, Q. Gong, E. Swanson, A. Talla, C. Lord, A. Heubeck, J. Reading, L. T. Graybuck, P. Meijer, T. R. Torgerson, P. Skene, T. Bumol, X.-j. Li

PALMO analyzes longitudinal multi-omics data by decomposing variations, identifying stable/variable features, and detecting markers across timepoints, validated on a complex dataset and external benchmarks.

bioRxiv · Oct 17, 2022 · PreprintImmunology

Distinct Heterogeneity in the Naive T cell Compartments of Children and Adults

C. E. Gustafson, Z. Thomson, Z. He, E. Swanson, K. Henderson, M.-P. L. Pebworth, L. Y. Okada, A. T. Heubeck, C. R. Roll, V. Hernandez, M. D. Weiss, P. C. Genge, J. Reading, J. R. Giles, S. Manne, , P. J. Skene

The study identifies age-related differences in naive T cell compartments between children and adults, showing distinct molecular reprogramming in CD4 and CD8 subsets.

bioRxiv · Oct 4, 2022 · PreprintImmunology

Multimodal Analysis for Human ex vivo Studies Shows Extensive Molecular Changes from Delays in Blood Processing

A. K. Savage, M. V. Gutschow, T. Chiang, K. Henderson, R. Green, M. Chaudhari, E. Swanson, A. T. Heubeck, N. Kondza, K. C. Burley, P. C. Genge, C. Lord, T. Smith, Z. Thomson, A. Beaubien, , T. F. Bumol

This study shows that delayed blood processing causes significant changes in single-cell transcriptomes and plasma proteomes within 6 hours, potentially confounding disease-related biological variance.

bioRxiv · Oct 18, 2020Immunology

TEA-seq: a trimodal assay for integrated single cell measurement of transcription, epitopes, and chromatin accessibility

E. Swanson, C. Lord, J. Reading, A. T. Heubeck, A. K. Savage, R. Green, X.-j. Li, T. R. Torgerson, T. F. Bumol, L. T. Graybuck, P. J. Skene

The paper introduces TEA-seq, a trimodal assay that integrates scRNA-seq, cell surface epitopes, and scATAC-seq to improve single-cell analysis of transcription, epitopes, and chromatin accessibility.

bioRxiv · Sep 4, 2020 · PreprintImmunology

Prediction of migratory routes of the invasive fall armyworm in eastern China using a trajectory analytical approach

X.-J. Li, M.-F. Wu, J. Ma, B.-Y. Gao, Q.-L. Wu, A.-D. Chen, J. Liu, Y.-Y. Jiang, B.-P. Zhai, R. Early, J. W. Chapman, G. Hu

The paper predicts migratory routes of the fall armyworm in eastern China using trajectory simulation combined with flight behavior and meteorological data, identifying two pathways to corn-producing regions.

bioRxiv · May 2, 2019Animal Behavior & Cognition

Human Cytomegalovirus Immediate-Early 1 Protein Causes Loss of SOX2 from Neural Progenitor Cells by Trapping Unphosphorylated STAT3 in the Nucleus

C.-C. Wu, X. Jiang, X.-Z. Wang, X.-J. Liu, X.-J. Li, B. Yang, H.-Q. Ye, T. Harwardt, M. Jiang, H.-M. Xia, W. Wang, W. J. Britt, C. Paulus, M. Nevels, M.-H. Luo

This study shows HCMV IE1 protein causes SOX2 loss in NPCs by trapping unphosphorylated STAT3 in the nucleus, leading to neurodevelopmental damage.

bioRxiv · Apr 25, 2018Microbiology